PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
Use this interactive explorer to filter all results across submission entries and multiple dimensions.
| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
14901-14950 / 86044 show all | |||||||||||||||
| dgrover-gatk | SNP | tv | map_l250_m2_e0 | het | 97.7378 | 97.9897 | 97.4872 | 91.2583 | 1901 | 39 | 1901 | 49 | 9 | 18.3673 | |
| dgrover-gatk | SNP | tv | map_l250_m2_e1 | het | 97.7665 | 98.0153 | 97.5190 | 91.3080 | 1926 | 39 | 1926 | 49 | 9 | 18.3673 | |
| egarrison-hhga | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 72.8990 | 58.1328 | 97.7209 | 46.5971 | 2223 | 1601 | 2101 | 49 | 43 | 87.7551 | |
| egarrison-hhga | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.4319 | 99.1366 | 99.7290 | 37.0539 | 18026 | 157 | 18031 | 49 | 28 | 57.1429 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 82.8070 | 95.5800 | 0 | 0 | 236 | 49 | 46 | 93.8776 | |
| egarrison-hhga | INDEL | D16_PLUS | HG002complexvar | het | 88.9628 | 83.8302 | 94.7650 | 61.7021 | 928 | 179 | 887 | 49 | 32 | 65.3061 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 64.3918 | 47.8099 | 98.5834 | 40.4750 | 3853 | 4206 | 3410 | 49 | 42 | 85.7143 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 64.3918 | 47.8099 | 98.5834 | 40.4750 | 3853 | 4206 | 3410 | 49 | 42 | 85.7143 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 92.9688 | 92.3674 | 93.5780 | 71.2618 | 714 | 59 | 714 | 49 | 29 | 59.1837 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 79.4110 | 79.6748 | 79.1489 | 83.7595 | 196 | 50 | 186 | 49 | 46 | 93.8776 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 98.1375 | 97.9385 | 98.3373 | 54.7451 | 2898 | 61 | 2898 | 49 | 23 | 46.9388 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.6770 | 98.5789 | 98.7753 | 48.4673 | 3954 | 57 | 3952 | 49 | 32 | 65.3061 | |
| mlin-fermikit | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | * | 98.1333 | 97.5422 | 98.7316 | 27.8079 | 3810 | 96 | 3814 | 49 | 41 | 83.6735 | |
| mlin-fermikit | SNP | tv | map_l100_m0_e0 | het | 56.5874 | 39.7258 | 98.3185 | 59.7124 | 2869 | 4353 | 2865 | 49 | 0 | 0.0000 | |
| ltrigg-rtg2 | SNP | tv | * | homalt | 99.9678 | 99.9486 | 99.9870 | 19.3650 | 376927 | 194 | 376951 | 49 | 41 | 83.6735 | |
| mlin-fermikit | INDEL | D16_PLUS | map_l100_m2_e0 | * | 59.1325 | 64.4444 | 54.6296 | 93.1904 | 58 | 32 | 59 | 49 | 15 | 30.6122 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | het | 65.8913 | 84.0000 | 54.2056 | 64.5695 | 42 | 8 | 58 | 49 | 46 | 93.8776 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 96.6651 | 96.2419 | 97.0920 | 67.8312 | 1639 | 64 | 1636 | 49 | 13 | 26.5306 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 93.7450 | 89.4498 | 98.4735 | 43.0447 | 3154 | 372 | 3161 | 49 | 44 | 89.7959 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 93.9563 | 93.3121 | 94.6095 | 71.5047 | 879 | 63 | 860 | 49 | 26 | 53.0612 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 93.7450 | 89.4498 | 98.4735 | 43.0447 | 3154 | 372 | 3161 | 49 | 44 | 89.7959 | |
| ndellapenna-hhga | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 97.7649 | 97.1817 | 98.3552 | 68.9461 | 2931 | 85 | 2930 | 49 | 11 | 22.4490 | |
| ndellapenna-hhga | SNP | ti | map_l125_m1_e0 | * | 99.1869 | 98.5512 | 99.8308 | 67.6959 | 28910 | 425 | 28910 | 49 | 27 | 55.1020 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 97.5228 | 95.7439 | 99.3691 | 35.4149 | 7716 | 343 | 7718 | 49 | 49 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 97.5228 | 95.7439 | 99.3691 | 35.4149 | 7716 | 343 | 7718 | 49 | 49 | 100.0000 | |
| ltrigg-rtg2 | INDEL | I6_15 | HG002compoundhet | homalt | 53.2110 | 93.5484 | 37.1795 | 63.3803 | 29 | 2 | 29 | 49 | 49 | 100.0000 | |
| qzeng-custom | SNP | * | func_cds | het | 99.6863 | 99.8118 | 99.5610 | 32.9992 | 11140 | 21 | 11112 | 49 | 1 | 2.0408 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 98.1272 | 97.5987 | 98.6615 | 84.6994 | 3536 | 87 | 3538 | 48 | 30 | 62.5000 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 43.8101 | 60.7843 | 34.2466 | 81.0390 | 31 | 20 | 25 | 48 | 46 | 95.8333 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.2263 | 99.6260 | 98.8298 | 49.0498 | 3996 | 15 | 4054 | 48 | 0 | 0.0000 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.9220 | 99.6855 | 98.1700 | 51.8185 | 2536 | 8 | 2575 | 48 | 0 | 0.0000 | |
| mlin-fermikit | INDEL | * | map_l100_m0_e0 | het | 63.6557 | 48.8737 | 91.2568 | 79.7342 | 499 | 522 | 501 | 48 | 14 | 29.1667 | |
| mlin-fermikit | INDEL | D1_5 | map_l125_m0_e0 | * | 63.8147 | 51.4113 | 84.1060 | 79.6633 | 255 | 241 | 254 | 48 | 41 | 85.4167 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.2771 | 98.9642 | 99.5919 | 45.6545 | 11752 | 123 | 11714 | 48 | 17 | 35.4167 | |
| ltrigg-rtg2 | INDEL | I1_5 | * | homalt | 99.7495 | 99.5797 | 99.9200 | 48.8836 | 60173 | 254 | 59955 | 48 | 38 | 79.1667 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.7424 | 96.3145 | 99.2132 | 57.7581 | 6089 | 233 | 6053 | 48 | 28 | 58.3333 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.7424 | 96.3145 | 99.2132 | 57.7581 | 6089 | 233 | 6053 | 48 | 28 | 58.3333 | |
| qzeng-custom | INDEL | D1_5 | map_l100_m2_e0 | * | 90.1218 | 83.8120 | 97.4590 | 87.8583 | 1605 | 310 | 1841 | 48 | 35 | 72.9167 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 49.0937 | 86.6667 | 34.2466 | 60.9626 | 13 | 2 | 25 | 48 | 1 | 2.0833 | |
| ndellapenna-hhga | INDEL | I6_15 | HG002complexvar | het | 96.5036 | 95.1592 | 97.8864 | 58.1922 | 2241 | 114 | 2223 | 48 | 17 | 35.4167 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 88.1449 | 83.3732 | 93.4959 | 66.1468 | 697 | 139 | 690 | 48 | 38 | 79.1667 | |
| gduggal-snapplat | SNP | ti | func_cds | het | 99.3942 | 99.3532 | 99.4351 | 33.3621 | 8449 | 55 | 8449 | 48 | 4 | 8.3333 | |
| gduggal-snapvard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 56.7831 | 40.6681 | 94.0520 | 68.9496 | 767 | 1119 | 759 | 48 | 45 | 93.7500 | |
| ghariani-varprowl | INDEL | D6_15 | segdup | * | 69.3267 | 66.4921 | 72.4138 | 94.6180 | 127 | 64 | 126 | 48 | 46 | 95.8333 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 72.5275 | 68.1818 | 77.4648 | 69.3966 | 165 | 77 | 165 | 48 | 46 | 95.8333 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 78.8127 | 90.1639 | 70.0000 | 64.4444 | 110 | 12 | 112 | 48 | 48 | 100.0000 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 94.7012 | 90.7431 | 99.0204 | 73.2912 | 4921 | 502 | 4852 | 48 | 28 | 58.3333 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 97.1716 | 99.7669 | 94.7078 | 58.2028 | 856 | 2 | 859 | 48 | 6 | 12.5000 | |
| gduggal-snapvard | INDEL | D6_15 | map_l125_m1_e0 | * | 71.3819 | 70.0855 | 72.7273 | 85.2349 | 82 | 35 | 128 | 48 | 32 | 66.6667 | |
| gduggal-snapvard | INDEL | D6_15 | segdup | het | 71.7253 | 78.2609 | 66.1972 | 93.2445 | 72 | 20 | 94 | 48 | 37 | 77.0833 | |